Something did not work as expected. Please file an issue at https://github.com/easystats/easystats/issues/ and post the following
output:
``check_model()` not implemented for models of class `glm` yet.`
| Metric | Value |
|---|---|
| AIC | 1417.81 |
| AICc | 1418.00 |
| BIC | 1475.94 |
| Tjur’s R2 | 0.07 |
| RMSE | 0.39 |
| Sigma | 0.98 |
| Log_loss | 0.48 |
| Score_log | -72.39 |
| Score_spherical | 8.72e-04 |
| PCP | 0.69 |
For interpretation of performance metrics, please refer to this documentation.
| Parameter | Log-Odds | SE | 95% CI | z | p |
|---|---|---|---|---|---|
| (Intercept) | -1.42 | 0.48 | (-2.38, -0.49) | -2.95 | 0.003 |
| Unionized | 0.31 | 0.16 | (-0.01, 0.62) | 1.92 | 0.055 |
| Female | 0.10 | 0.14 | (-0.17, 0.37) | 0.72 | 0.474 |
| X003 | -0.01 | 5.90e-03 | (-0.02, -7.18e-04) | -2.07 | 0.038 |
| Educ (2) | -0.05 | 0.27 | (-0.57, 0.50) | -0.19 | 0.846 |
| Educ (3) | 0.26 | 0.29 | (-0.29, 0.84) | 0.89 | 0.372 |
| private sector | -0.40 | 0.31 | (-1.00, 0.24) | -1.26 | 0.208 |
| politicization | 0.30 | 0.09 | (0.12, 0.49) | 3.19 | 0.001 |
| Wave (Wave 6) | 0.49 | 0.17 | (0.16, 0.84) | 2.84 | 0.005 |
| Wave (Wave 7) | -0.12 | 0.18 | (-0.48, 0.24) | -0.66 | 0.508 |
| private sector × politicization | -0.02 | 0.10 | (-0.22, 0.18) | -0.19 | 0.850 |
To find out more about table summary options, please refer to this documentation.
We fitted a logistic model (estimated using ML) to predict demonstr_dummy with Unionized, Female, X003, Educ, private_sector, politicization and Wave (formula: demonstr_dummy ~ Unionized + Female + X003 + Educ + private_sector + politicization + Wave + private_sector * politicization). The model’s explanatory power is weak (Tjur’s R2 = 0.07). The model’s intercept, corresponding to Unionized = 0, Female = 0, X003 = 0, Educ = 1, private_sector = 0, politicization = 0 and Wave = Wave 5, is at -1.42 (95% CI (-2.38, -0.49), p = 0.003). Within this model:
Standardized parameters were obtained by fitting the model on a standardized version of the dataset. 95% Confidence Intervals (CIs) and p-values were computed using a Wald z-distribution approximation. The model’s explanatory power is weak (Tjur’s R2 = 0.07)
Error in (function (..., row.names = NULL, check.rows = FALSE, check.names = TRUE, : arguments imply differing number of rows: 1, 0
List of 47
$ is_binomial : logi TRUE
$ is_bernoulli : logi TRUE
$ is_count : logi FALSE
$ is_poisson : logi FALSE
$ is_negbin : logi FALSE
$ is_beta : logi FALSE
$ is_betabinomial : logi FALSE
$ is_dirichlet : logi FALSE
$ is_exponential : logi FALSE
$ is_logit : logi TRUE
$ is_probit : logi FALSE
$ is_censored : logi FALSE
$ is_truncated : logi FALSE
$ is_survival : logi FALSE
$ is_linear : logi FALSE
$ is_tweedie : logi FALSE
$ is_zeroinf : logi FALSE
$ is_zero_inflated: logi FALSE
$ is_dispersion : logi FALSE
$ is_hurdle : logi FALSE
$ is_ordinal : logi FALSE
$ is_cumulative : logi FALSE
$ is_multinomial : logi FALSE
$ is_categorical : logi FALSE
$ is_mixed : logi FALSE
$ is_multivariate : logi FALSE
$ is_trial : logi FALSE
$ is_bayesian : logi FALSE
$ is_gam : logi FALSE
$ is_anova : logi FALSE
$ is_timeseries : logi FALSE
$ is_ttest : logi FALSE
$ is_correlation : logi FALSE
$ is_onewaytest : logi FALSE
$ is_chi2test : logi FALSE
$ is_ranktest : logi FALSE
$ is_levenetest : logi FALSE
$ is_variancetest : logi FALSE
$ is_xtab : logi FALSE
$ is_proptest : logi FALSE
$ is_binomtest : logi FALSE
$ is_ftest : logi FALSE
$ is_meta : logi FALSE
$ link_function : chr "logit"
$ family : chr "binomial"
$ n_obs : int 1457
$ n_grouplevels : NULL
Error in DT::datatable(model_info_data): 'data' must be 2-dimensional (e.g. data frame or matrix)
---
title: "Regression model summary from `{easystats}`"
output:
flexdashboard::flex_dashboard:
theme:
version: 4
# bg: "#101010"
# fg: "#FDF7F7"
primary: "#0054AD"
base_font:
google: Prompt
code_font:
google: JetBrains Mono
params:
model: model
check_model_args: check_model_args
parameters_args: parameters_args
performance_args: performance_args
---
```{r setup, include=FALSE}
library(flexdashboard)
library(easystats)
# Since not all regression model are supported across all packages, make the
# dashboard chunks more fault-tolerant. E.g. a model might be supported in
# `{parameters}`, but not in `{report}`.
#
# For this reason, `error = TRUE`
knitr::opts_chunk$set(
error = TRUE,
out.width = "100%"
)
# helper function for printing `{report}` outputs
bracket_to_parantheses <- function(text) {
gsub("]", ")", gsub("[", "(", text, fixed = TRUE), fixed = TRUE)
}
```
```{r easydashboard-1}
# Get user-specified model data
model <- params$model
# Is it supported by `{easystats}`? Skip evaluation of the following chunks if not.
is_supported <- insight::is_model_supported(model)
if (!is_supported) {
unsupported_message <- sprintf(
"Unfortunately, objects of class `%s` are not yet supported in {easystats}.\n
For a list of supported models, see `insight::supported_models()`.",
class(model)[1]
)
}
```
Model fit
=====================================
Column {data-width=700}
-----------------------------------------------------------------------
### Assumption checks
```{r check-model, eval=is_supported, fig.height=10, fig.width=10}
check_model_args <- c(list(model), params$check_model_args)
# add verbose, if not done yet
if (is.null(check_model_args$verbose)) check_model_args$verbose <- FALSE
tryCatch(
{
do.call(performance::check_model, check_model_args)
},
error = function(e) {
cat(insight::format_message(
"\nSomething did not work as expected. Please file an issue at {.url https://github.com/easystats/easystats/issues/} and post the following output:",
paste0("\n`", e$message, "`")
))
}
)
```
```{r easydashboard-2, eval=!is_supported}
cat(unsupported_message)
```
Column {data-width=300}
-----------------------------------------------------------------------
### Indices of model fit
```{r easydashboard-3, eval=is_supported}
# `{performance}`
performance_args <- c(list(model), params$performance_args)
# add verbose, if not done yet
if (is.null(performance_args$verbose)) performance_args$verbose <- FALSE
table_performance <- do.call(performance::performance, performance_args)
print_md(table_performance, layout = "vertical", caption = NULL)
```
```{r easydashboard-4, eval=!is_supported}
cat(unsupported_message)
```
For interpretation of performance metrics, please refer to <a href="https://easystats.github.io/performance/reference/model_performance.html" target="_blank">this documentation</a>.
Parameter estimates
=====================================
Column {data-width=550}
-----------------------------------------------------------------------
### Plot
```{r dot-whisker, eval=is_supported}
# `{parameters}`
parameters_args <- c(list(model), params$parameters_args)
# add verbose, if not done yet
if (is.null(parameters_args$verbose)) parameters_args$verbose <- FALSE
table_parameters <- do.call(parameters::parameters, parameters_args)
plot(table_parameters)
```
```{r easydashboard-5, eval=!is_supported}
cat(unsupported_message)
```
Column {data-width=450}
-----------------------------------------------------------------------
### Tabular summary
```{r easydashboard-6, eval=is_supported}
print_md(table_parameters, caption = NULL)
```
```{r easydashboard-7, eval=!is_supported}
cat(unsupported_message)
```
To find out more about table summary options, please refer to <a href="https://easystats.github.io/parameters/reference/model_parameters.html" target="_blank">this documentation</a>.
Predicted Values
=====================================
Column {data-width=600}
-----------------------------------------------------------------------
### Plot
```{r expected-values, eval=is_supported, fig.height=10, fig.width=10}
# `{modelbased}`
int_terms <- find_interactions(model, component = "conditional", flatten = TRUE)
con_terms <- find_variables(model)$conditional
if (is.null(int_terms)) {
model_terms <- con_terms
} else {
model_terms <- clean_names(int_terms)
int_terms <- unique(unlist(strsplit(clean_names(int_terms), ":", fixed = TRUE)))
model_terms <- c(model_terms, setdiff(con_terms, int_terms))
}
# check some exceptions here: logistic regression models with factor response
# usually require the response to be included in the model, else `get_modelmatrix()`
# fails, which is required to compute SE/CI for `get_predicted()`
response <- find_response(model)
minfo <- model_info(model)
model_data <- get_data(model)
include_response <- minfo$is_binomial && minfo$is_logit && is.factor(model_data[[response]])
text_modelbased <- tryCatch(
{
lapply(unique(model_terms), function(i) {
grid <- get_datagrid(
model,
at = i,
range = "grid",
preserve_range = FALSE,
verbose = FALSE,
include_response = include_response
)
estimate_expectation(model, data = grid, verbose = FALSE)
})
},
error = function(e) {
cat(insight::format_message(
"\nSomething did not work as expected. Please file an issue at {.url https://github.com/easystats/easystats/issues/} and post the following output:",
paste0("\n`", e$message, "`")
))
NULL
}
)
if (!is.null(text_modelbased)) {
ggplot2::theme_set(theme_modern())
# all_plots <- lapply(text_modelbased, function(i) {
# out <- do.call(visualisation_recipe, c(list(i), modelbased_args))
# plot(out) + ggplot2::ggtitle("")
# })
all_plots <- lapply(text_modelbased, function(i) {
out <- visualisation_recipe(i, show_data = "none")
plot(out) + ggplot2::ggtitle("")
})
see::plots(all_plots, n_columns = round(sqrt(length(text_modelbased))))
}
```
```{r easydashboard-8, eval=!is_supported}
cat(unsupported_message)
```
Column {data-width=400}
-----------------------------------------------------------------------
### Tabular summary
```{r easydashboard-9, eval=is_supported, results="asis"}
if (!is.null(text_modelbased)) {
for (i in text_modelbased) {
tmp <- print_md(i)
tmp <- gsub("Variable predicted", "\nVariable predicted", tmp, fixed = TRUE)
tmp <- gsub("Predictors modulated", "\nPredictors modulated", tmp, fixed = TRUE)
tmp <- gsub("Predictors controlled", "\nPredictors controlled", tmp, fixed = TRUE)
print(tmp)
}
}
```
```{r easydashboard-10, eval=!is_supported}
cat(unsupported_message)
```
Text reports
=====================================
Column {data-width=500}
-----------------------------------------------------------------------
### Textual summary
```{r easydashboard-11, eval=is_supported, results='asis', collapse=TRUE}
# `{report}`
text_report <- tryCatch(
{
report(model, verbose = FALSE)
},
error = function(e) {
cat(insight::format_message(
"\nSomething did not work as expected. Please file an issue at {.url https://github.com/easystats/easystats/issues/} and post the following output:",
paste0("\n`", e$message, "`")
))
NULL
}
)
text_report_performance <- tryCatch(
{
report_performance(model, verbose = FALSE)
},
error = function(e) {
cat(insight::format_message(
"\nSomething did not work as expected. Please file an issue at {.url https://github.com/easystats/easystats/issues/} and post the following output:",
paste0("\n`", e$message, "`")
))
NULL
}
)
if (!is.null(text_report)) {
cat(bracket_to_parantheses(text_report))
cat("\n")
}
if (!is.null(text_report_performance)) {
cat(bracket_to_parantheses(text_report_performance))
}
```
```{r easydashboard-12, eval=!is_supported}
cat(unsupported_message)
```
Column {data-width=500}
-----------------------------------------------------------------------
### Model information
```{r easydashboard-13, eval=is_supported}
model_info_data <- insight::model_info(model, verbose = FALSE)
model_info_data <- datawizard::data_to_long(as.data.frame(model_info_data))
DT::datatable(model_info_data)
```
```{r easydashboard-14, eval=!is_supported}
cat(unsupported_message)
```